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FILE 'CAPLUS, MEDLINE , BIOSIS, EMBASE ' ENTERED AT 13:02:57 ON 31 MAR 2004 



T 1 

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b EAPREbffffff bAME FUSION PROTEIN SAME REPOTER SAME LIBRARffffff 


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S L17 AND FLUORESCENT PROTEIN 


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FILE 'CAPLUS' ENTERED AT 13:02:57 ON 31 MAR 2004 

USE IS SUBJECT TO THE TERMS OF YOUR STN CUSTOMER AGREEMENT. 

PLEASE SEE "HELP USAGETERMS " FOR DETAILS. 

COPYRIGHT (C) 2 004 AMERICAN CHEMICAL SOCIETY (ACS) 

FILE 1 MEDLINE 1 ENTERED AT 13:02:57 ON 31 MAR 2 004 

FILE MIOSIS' ENTERED AT 13:02:57 ON 31 MAR 2 0 04 
COPYRIGHT (C) 2 004 BIOLOGICAL ABSTRACTS INC. (R) 

FILE 'EMBASE 1 ENTERED AT 13:02:57 ON 31 MAR 2004 
COPYRIGHT (C) 2 004 Elsevier Inc. All rights reserved. 

=> s Jiang. in. 

LI 1090 JIANG. IN. 

=> s 11 and fusion protein 

L2 8 LI AND FUSION PROTEIN 

=> dup rem 112 

L12 IS NOT VALID HERE 

The L-number entered has not been defined in this session, or it 
has been deleted. To see the L-numbers currently defined in this 
session, enter DISPLAY HISTORY at an arrow prompt ( = >) . 

=> dup rem 12 

PROCESSING COMPLETED FOR L2 

L3 2 DUP REM L2 (6 DUPLICATES REMOVED) 

=> d 13 1-2 bib ab kwic 

L3 ANSWER 1 OF 2 CAPLUS COPYRIGHT 2 004 ACS on STN DUPLICATE 1 
AN 1999:320171 CAPLUS 
DN 131:100245 

TI Expression of a truncated receptor protein tyrosine phosphatase kappa in 

the brain of an adult transgenic mouse 
AU Shen, P.; Canoll, P. D.; Sap, J.; Musacchio, J. M. 

CS Department of Pharmacology, New York University Medical Center, New York, 

NY, 10016, USA 
SO Brain Research (1999), 826(2), 157-171 

CODEN: BRREAP; ISSN: 0006-8993 
PB Elsevier Science B.V. 
DT Journal 
LA English 

AB Receptor protein tyrosine phosphatases (RPTPs) comprise a family of 

proteins that feature intracellular phosphatase domains and an ectodomain 
with putative ligand-binding motifs'. Several RPTPs are expressed in the 
brain, including RPTP-K which participates in homophilic cell-cell 
interactions in vitro (Jiang, Y.-P et al . , 1993; Sap, J. et al . , 
1994). The homol. of RPTP-k's ectodomain to neural cell adhesion 
mols. indicates potential roles in developmental processes such as axonal 
growth and target recognition, as has been demonstrated for certain 
Drosophila RPTPs. The brain distribution of RPTP-K-expressing cells 
has not been determined, however. In a gene-trap mouse model with a P-gal 
+ neo (1-geo) insertion in the endogenous RPTP-k gene, the 
consequent loss of RPTP-k's enzymic activity does not produce any 
obvious phenotypic defects (Skarnes, W. C. et al . , 1995). Nevertheless, 
since the transgene • s expression is driven by the endogenous RPTP-k 
promoter, distribution of the truncated RPTP-K/p-geo 
fusion protein should reflect the regional and cellular 
expression of wild-type RPTP-k, and thus may identify sites where 
RPTP-k is important. Towards that goal, the authors have used this 
mouse model to map the distribution of the truncated RPTP-K/p- 
geo fusion protein in the adult mouse brain using 



p-galactosidase as a marker enzyme. Visualization of the 
p-galactosidase activity revealed a non-random pattern of expression, 
and identified cells throughout the CNS that display RPTP-k promoter 
activity. Several neural systems highly expressed the transgene-most 
notably cortical, olfactory, hippocampal, hypothalamic, amygdaloid and 
visual structures. These well -characterized brain regions may provide a 
basis for future studies of RPTP-k function. 
RE.CNT 4 0 THERE ARE 4 0 CITED REFERENCES AVAILABLE FOR THIS RECORD 

ALL CITATIONS AVAILABLE IN THE RE FORMAT 
AB Receptor protein tyrosine phosphatases (RPTPs) comprise a family of 

proteins that feature intracellular phosphatase domains and an ectodomain 
with putative ligand-binding motifs. Several RPTPs are expressed in the 
brain, including RPTP-K which participates in homophilic cell-cell 
interactions in vitro (Jiang, Y.-P et al . , 1993; Sap, J. et al . , 
1994). The homol . of RPTP-k' s ectodomain to neural cell adhesion 
mols. indicates potential roles in developmental processes such as axonal 
growth and target recognition, as has been demonstrated for certain 
Drosophila RPTPs. The brain distribution of RPTP-K-expressing cells 
has not been determined, however. In a gene -trap mouse model with a p-gal 
+ neo (1-geo) insertion in the endogenous RPTP-k gene, the 
consequent loss of RPTP-k's enzymic activity does not produce any 
obvious phenotypic defects (Skarnes, W. C. et al . , 1995). Nevertheless, 
since the transgene ' s expression is driven by the endogenous RPTP-k 
promoter, distribution of the truncated RPTP-K/p-geo 
fusion protein should reflect the regional and cellular 
expression of wild-type RPTP-k, and thus may identify sites where 
RPTP-k is important. Towards that goal, the authors have used this 
mouse model to map the distribution of the truncated RPTP-k/P- 
geo fusion protein in the adult mouse brain using 
p-galactosidase as a marker enzyme. Visualization of the 
p-galactosidase activity revealed a non-random pattern of expression, 
and identified cells throughout the CNS that display RPTP-k promoter 
activity. Several neural systems highly expressed the transgene-most 
notably cortical, olfactory, hippocampal, hypothalamic, amygdaloid and 
visual structures. These well-characterized brain regions may provide a 
basis for future studies of RPTP-k function. 

ANSWER 2 OF 2 CAPLUS COPYRIGHT 2 004 ACS on STN DUPLICATE 2 
1997:698880 CAPLUS 
128 :31575 

Cloning and expression of a gene encoding a protein obtained from 
earthworm secretion that is a chemoattractant for garter snakes 
Liu, Weimin; Wang, Dalton; Chen, Ping; Halpern, Mimi 

Department of Biochemistry, SUNY Health Science Center at Brooklyn, NY, 
11203, USA 

Journal of Biological Chemistry (1997), 272(43), 27378-27381 
CODEN: JBCHA3; ISSN: 0021-9258 

American Society for Biochemistry and Molecular Biology 
Journal 
English 

The protein ES20, derived from earthworm shock secretion, is a 
vomeronasally mediated chemoattractant for garter snakes (Jiang, 
X. C, Inouchi, J., Wang, D., and Halpern, M. (1990) J. Biol. Chemical 265, 
8736-8744) . Based on its 15-residue N-terminal amino acid sequence, 
degenerative oligodeoxynucleotide probes were synthesized and used to 
screen a cDNA library that was constructed in sense orientation using a 
Uni-ZAP XR vector and XLl-Blue MRF 1 host. A gene was cloned from a 
polymerase chain reaction as well as from the cDNA library. A combination 
of the forward degenerative primer and T7 primer was used to obtain 
gene-specific DNA fragments, from which probes were synthesized and 
successfully used in screening the cDNA library. The ES2 0 gene is about 
700 base pairs long and encodes 208 amino residues. The ES20 gene was 
excised from a recombinant plasmid pSK-ES20, ligated to pQE30 expression 
vector, and transformed into Escherichia coli strain JM109. The selected 



L3 
AN 
DN 
TI 

AU 
CS 

SO 

PB 
DT 
LA 
AB 



recombinant plasmids were transformed into expression host cell, E. coli 
M15 [pREP4] . Three transf ormants were selected, induced with 
isopropyl-l-thio-p-D-galactopyranoside for fusion gene expression and 
an expressed 20-kDa fusion protein purified under 

denaturing conditions. This protein was refolded and gave a pos . reaction 
against ES20-specif ic polyclonal antibodies. The fusion 
protein that had not been denatured remained as an aggregate and 
was an active chemoattractant for garter snakes. 

RE.CNT 19 THERE ARE 19 CITED REFERENCES AVAILABLE FOR THIS RECORD 
ALL CITATIONS AVAILABLE IN THE RE FORMAT 

AB The protein ES2 0, derived from earthworm shock secretion, is a 

vomeronasally mediated chemoattractant for garter snakes (Jiang, 
X. C, Inouchi, J. , Wang, D., and Halpern, M. (1990) J. Biol. Chemical 265, 
8736-8744) . Based on its 15-residue N-terminal amino acid sequence, 
degenerative oligodeoxynucleotide probes were synthesized and used to 
screen a cDNA library that was constructed in sense orientation using a 
Uni-ZAP XR vector and XLl-Blue MRF 1 host. A gene was cloned from a 
polymerase chain reaction as well as from the cDNA library. A combination 
of the forward degenerative primer and T7 primer was used to obtain 
gene-specific DNA fragments, from which probes were synthesized and 
successfully used in screening the cDNA library. The ES20 gene is about 
700 base pairs long and encodes 2 08 amino residues. The ES2 0 gene was 
excised from a recombinant plasmid pSK-ES20, ligated to pQE30 expression 
vector, and transformed into Escherichia coli strain JM109. The selected 
recombinant plasmids were transformed into expression host cell, E. coli 
M15 [pREP4] . Three transf ormants were selected, induced with 
isopropyl-l-thio-p-D-galactopyranoside for fusion gene expression and 
an expressed 20-kDa fusion protein purified under 

denaturing conditions. This protein was refolded and gave a pos. reaction 
against ES20-specif ic polyclonal antibodies. The fusion 
protein that had not been denatured remained as an aggregate and 
was an active chemoattractant for garter snakes. 



=> s expres### same fusion protein same repoter same librar### 

L4 0 EXPRES### SAME FUSION PROTEIN SAME REPOTER SAME LIBRAR### 

=> s expres### (10a) fusion protein (10a) reporter# 

L5 35 EXPRES###(10A) FUSION PROTEIN (10A) REPORTER# 

=> s 15 and librar### 

L6 4 L5 AND LIBRAR### 

=> s 16 and cycloheximide 

L7 0 L6 AND CYCLOHEXIMIDE 

=> dup rem 16 

PROCESSING COMPLETED FOR L6 

L8 4 DUP REM L6 (0 DUPLICATES REMOVED) 

=> d 18 1-4 bib ab kwic 

L8 ANSWER 1 OF 4 CAPLUS COPYRIGHT 2 004 ACS on STN 
AN 2003:656310 CAPLUS 
DN 139:174827 

TI Methods and kits for isolating and characterizing short-lived proteins and 

arrays derived therefrom for use in drug screening 
IN Li, Xianqiang; Jiang, Xin 
PA USA 

SO U.S. Pat. Appl. Publ., 30 pp., Cont . -in-part of U.S. Ser. No. 53,230. 

CODEN: USXXCO 
DT Patent 
LA English 
FAN.CNT 3 



PATENT NO. KIND DATE APPLICATION NO. DATE 



PI 


US 


2003157540 


Al 


20030821 


US 


2003 


-347160 


20030116 




US 


2003134287 


Al 


20030717 


US 


2002 


-53230 


20020116 




US 


2003134288 


Al 


20030717 


US 


2002 


-53516 


20020116 


PRAI 


US 


2002-53230 


A2 


20020116 












us 


2002-53516 


A2 


20020116 











AB Compns . , kits and methods are provided for isolating and characterizing 
short-lived proteins. The method comprises taking a library of 
cells wherein each cell in the library expresses a 
fusion protein comprising a reporter protein 

and a protein encoded by a sequence from a cDNA library derived 
from a sample of cells.. The sequence from the cDNA library is 
varied within the cell library and the rate of protein 
expression or degradation by cells in the library is modified. A 
population of cells is selected from the library of cells based 
on the population of cells having different reporter signal intensities 
than other cells in the library wherein the difference between 
intensities is indicative of the population of cells expressing shorter 
lived fusion proteins than the fusion proteins expressed by the other 
cells in the library and determining protein sequences of the fusion 
proteins of the selected population of cells. Also provided are 
oligonucleotide, protein and antibody arrays derived from short-lived 
proteins. The arrays can be used for efficiently profiling expression of 
short-lived proteins, screening for binding agents and comparing 
expression levels under different conditions. 
AB Compns., kits and methods are provided for isolating and characterizing 
short-lived proteins. The method comprises taking a library of 
cells wherein each cell in the library expresses a 
fusion protein comprising a reporter protein 

and a protein encoded by a sequence from a cDNA library derived 
from a sample of cells.. The sequence from the cDNA library is 
varied within the cell library and the rate of protein 
expression or degradation by cells in the library is modified. A 
population of cells is selected from the library of cells based 
on the population of cells having different reporter signal intensities 
than other cells in the library wherein the difference between 
intensities is indicative of the population of cells expressing shorter 
lived fusion proteins than the fusion proteins expressed by the other 
cells in the library and determining protein sequences of the fusion 
proteins of the selected population of cells. Also provided are 
oligonucleotide, protein and antibody arrays derived from short-lived 
proteins. The arrays can be used for efficiently profiling expression of 
short-lived proteins, screening for binding agents and comparing 
expression levels under different conditions. 
IT Animal cell 

(library; methods and kits for isolating and characterizing 
short-lived proteins and arrays derived therefrom for use in drug 
screening) 
IT cDNA library 

(proteins encoded by; methods and kits for isolating and characterizing 
short-lived proteins and arrays derived therefrom for use in drug 
screening) 

L8 ANSWER 2 OF 4 CAPLUS COPYRIGHT 2 004 ACS on STN 
AN 2002:353656 CAPLUS 
DN 136:351377 

TI Screening genes encoding nuclear transport proteins by GFP fusion protein 

expression and cell sorting 
IN Maekawa, Takami; Mori, Maiko; Takahara, Yoshiyuki 
PA Aj inomoto Co . , Inc . , Japan 
SO PCT Int. Appl., 60 pp. 

CODEN: PIXXD2 
DT Patent 



LA Japanese 
FAN.CNT 1 

PATENT NO. 



KIND DATE 



APPLICATION NO. DATE 



PI WO 2002036823 Al 20020510 WO 2001-JP9700 20011106 

W: AE, AG, AL, AM, AT, AU, AZ , BA, BB, BG, BR, BY, BZ, CA, CH, CN, 
CO, CR, CU, CZ, DE, DK, DM, DZ, EC, EE, ES , PI, GB, GD, GE, GH, 
GM, HR, HU, ID, IL, IN, IS, JP, KE, KG, KP, KR, KZ, LC, LK, LR, 
LS, LT, LU, LV, MA, MD, MG, MK, MN, MW, MX, MZ, NO, NZ, OM, PH, 
PL, PT, RO, RU, SD, SE, SG, SI, SK, SL, TJ, TM, TR, TT, TZ, UA, 
UG, US, UZ, VN, YU, ZA, ZW, AM, AZ, BY, KG, KZ, MD, RU, TJ, TM 
RW: GH, GM, KE, LS, MW, MZ , SD, SL, SZ, TZ , UG, ZW, AT, BE, CH, CY, 
DE, DK, ES, FI, FR, GB, GR, IE, IT, LU, MC, NL, PT, SE, TR, BF, 
BJ, CF, CG, CI, CM, GA, GN, GQ, GW, ML, MR, NE, SN, TD, TG 
AU 2002011021 A5 20020515 AU 2002-11021 20011106 

EP 1333099 Al 20030806 EP 2001-979034 20011106 

R: AT, BE, CH, DE, DK, ES, FR, GB, GR, IT, LI, LU, NL, SE, MC , PT, 
IE, SI, LT, LV, FI, RO, MK, CY, AL, TR 
US 2003180801 Al 20030925 US 2002-204310 20020821 

PRAI JP 2000-337906 A 20001106 
WO 2001-JP9700 W 20011106 
AB A method for screening a gene encoding a protein specifically transporting 

into nucleus by cloning each gene in a group of a large number of genes into 
an expression vector to express as fusion 
protein with a marker or reporter protein to construct a 
gene expression library, introducing this gene expression 
library into two cell groups to express the fusion proteins, 
stimulating one of the cell groups, separating cells wherein the fusion 
proteins are localized in the nucleus of such cells from both cell groups, 
and comparing the separated cells or nuclei to thereby search for a gene 
encoding a protein specifically transporting into the nucleus upon 
stimulus, is disclosed. A nuclear localization signal is used in fusion 
protein. Cell sorting, flow cytometry, microdissection, or microscopy 
observation, is used to sort cells. 11 ESTs and 6 unknown genes coding 
for proteins transporting into nucleus were identified by expressing as 
GFP fusion proteins in HepG2 cells and stimulating with TNFa . Eight 
unknown genes were also identified by heat shock stimulation. 
RE.CNT 1 THERE ARE 1 CITED REFERENCES AVAILABLE FOR THIS RECORD 

ALL CITATIONS AVAILABLE IN THE RE FORMAT 
AB A method for screening a gene encoding a protein specifically transporting 

into nucleus by cloning each gene in a group of a large number of genes into 
an expression vector to express as fusion 
protein with a marker or reporter protein to construct a 
gene expression library, introducing this gene expression 
library into two cell groups to express the fusion proteins, 
stimulating one of the cell groups, separating cells wherein the fusion 
proteins are localized in the nucleus of such cells from both cell groups, 
and comparing the separated cells or nuclei to thereby search for a gene 
encoding a protein specifically transporting into the nucleus upon 
stimulus, is disclosed. A nuclear localization signal is used in fusion 
protein. Cell sorting, flow cytometry, microdissection, or microscopy 
observation, is used to sort cells. 11 ESTs and 6 unknown genes coding 
for proteins transporting into nucleus were identified by expressing as 
GFP fusion proteins in HepG2 cells and stimulating with TNFa. Eight 
unknown genes were also identified by heat shock stimulation. 
IT Nucleic acid library 

(gene expression; screening genes encoding nuclear transport proteins 
by GFP fusion protein expression and cell sorting) 

L8 ANSWER 3 OF 4 CAPLUS COPYRIGHT 2 004 ACS on STN 
AN 1997:740333 CAPLUS 
DN 128:10873 

TI A three -hybrid reporter gene method for screening for proteins binding 
defined ligands 



IN Liu, Jun; Licitra, Edward J. 

PA Massachusetts Institute of Technology, USA 

SO PCT Int. Appl., 4 0 pp. 

COD EN: PIXXD2 
DT Patent 
LA English 
FAN.CNT 1 

PATENT NO. KIND DATE APPLICATION NO. DATE 



PI wo 


9741255 
W: CA, 


JP 


Al 


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R: AT, 


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CH, DE, 


DK, ES, 


FR, 


GB, GR, IT, LI, LU, 


NL, SE, 




IE, 


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US 


5928868 




A 


19990727 




US 1997-845674 


19970425 


JP 


2000508923 


T2 


20000718 




JP 1997-539036 


19970425 


DE 


29724617 




Ul 


20020718 




DE 1997-29724617 


19970425 


EP 


1241265 




A2 


20020918 




EP 2002-76267 


19970425 


EP 


1241265 




A3 


20040218 










R: AT, 


BE, 


CH, DE, 


DK, ES, 


FR, 


GB, GR, IT, LI, LU, 


NL, SE, 




IE, 


SI, 


LT, LV, 


FI, RO, 


MK, 


CY, AL 




AT 


224454 




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20021015 




AT 1997-921370 


19970425 


ES 


2183166 




T3 


20030316 




ES 1997-921370 


19970425 


PRAI US 


1996-17341P 


P 


19960426 








EP 


1997-921370 


A3 


19970425 








WO 


1997-US6912 


W 


19970425 









NL, PT, SE 



MC, PT, 



MC, PT, 



AB A method for identifying the binding partner for a define ligand using an 
extension of the two-hybrid system is described. The method uses a fusion 
protein of the LexA protein and a ligand binding protein to bind to a LexA 
operator upstream of a reporter gene. This is bound to by a conjugate of 
the natural ligand for the protein and the ligand of interest. Possible 
binding partners for the ligand are identified by introduction of an 
expression library in which the proteins are synthesized as 
fusion products with a transcriptional activator. When the necessary 
combination of LexA fusion protein, ligand, and transcriptional activator 
fusion protein are brought together, the 
reporter gene is expressed. The method is particularly 
intended for the identification of natural binding partners for small 
mols. A fusion product of LexA and the rat glucocorticoid receptor is 
used in a reconstruction experiment with FK506-binding protein FKBP12 is used 
to demonstrate using a conjugate of dexamethasone and FK506 as the hybrid 
ligand . 

AB A method for identifying the binding partner for a define ligand using an 
extension of the two-hybrid system is described. The method uses a fusion 
protein of the LexA protein and a ligand binding protein to bind to a LexA 
operator upstream of a reporter gene. This is bound to by a conjugate of 
the natural ligand for the protein and the ligand of interest. Possible 
binding partners for the ligand are identified by introduction of an 
expression library in which the proteins are synthesized as 
fusion products with a transcriptional activator. When the necessary 
combination of LexA fusion protein, ligand, and transcriptional activator 
fusion protein are brought together, the 
reporter gene is expressed. The method is particularly 
intended for the identification of natural binding partners for small 
mols. A fusion product of LexA and the rat glucocorticoid receptor is 
used in a reconstruction experiment with FK506-binding protein FKBP12 is used 
to demonstrate using a conjugate of dexamethasone and FK506 as the hybrid 
ligand . 

IT Combinatorial library 

(nucleic acid, screening for ligand-binding proteins of; three-hybrid 
reporter gene method for screening for proteins binding defined 



ligands) 
IT Nucleic acid library 

(screening for ligand-binding proteins of; three-hybrid reporter gene 
method for screening for proteins binding defined ligands) 

L8 ANSWER 4 OF 4 MEDLINE on STN 

AN 9714 0325 MEDLINE 
DN PubMed ID: 8986806 

TI A novel member of the RING finger family, KRIP-1, associates with the 
KRAB-A transcriptional repressor domain of zinc finger proteins. 

AU Kim S S; Chen Y M; 0 ' Leary E; Witzgall R; Vidal M; Bonventre J V 

CS Renal Unit, Massachusetts General Hospital, Charlestown 02129, USA. 

NC DK 38452 (NIDDK) 
DK 39773 (NIDDK) 
NS 10828 (NINDS) 

SO Proceedings of the National Academy of Sciences of the United States of 

America, (1996 Dec 24) 93 (26) 15299-304. 

Journal code: 7505876. ISSN: 0027-8424. 
CY United States 

DT Journal; Article; (JOURNAL ARTICLE) 

LA English 

FS Priority Journals 

OS GENBANK-U673 03 

EM 199701 

ED Entered STN: 19970219 

Last Updated on STN: 19970219 
Entered Medline: 19970128 

AB The Kruppel-associated box A (KRAB-A) domain is an evolutionarily 

conserved transcriptional repressor domain present in approximately 
one-third of zinc finger proteins of the Cys2-His2 type. Using the yeast 
two-hybrid system, we report the isolation of a cDNA encoding a novel 
murine protein, KRAB-A interacting protein 1 (KRIP-1) that physically 
interacts with the KRAB-A region. KRIP-1 is a member of the RBCC 
subfamily of the RING finger, or Cys3HisCys4, family of zinc binding 
proteins whose other members are known to play important roles in 
differentiation, oncogenesis, and signal transduction. The KRIP-1 protein 
has high homology to TIF1, a putative modulator of ligand- dependent 
activation function of nuclear receptors. A 3.5-kb mRNA for KRIP-1 is 
ubiquitously expressed among all adult mouse tissues studied. When a 
GAL4 -KRIP-1 fusion protein is expressed in 

COS cells with a chloramphenicol acetyltransf erase reporter 
construct with five GAL 4 binding sites, there is dose-dependent repression 
of transcription. Thus, KRIP-1 interacts with the KRAB-A region of C2H2 
zinc finger proteins and may mediate or modulate KRAB-A transcriptional 
repressor activity. 

AB ... of nuclear receptors. A 3.5-kb mRNA for KRIP-1 is ubiquitously 
expressed among all adult mouse tissues studied. When a GAL4 -KRIP-1 
fusion protein is expressed in COS cells with 

a chloramphenicol acetyltransf erase reporter construct with five 
GAL4 binding sites, there is dose-dependent repression of transcription. 
Thus, KRIP-1 interacts with the KRAB-A region of. 
CT Check Tags : Support, Non-U. S. Gov't; Support, U.S. Gov't, P.H.S. 

Amino Acid Sequence 

Animals 

Base Sequence 

COS Cells 

Conserved Sequence 
Embryo 

Gene Library 
Kidney: ME, metabolism 
Mice 

Molecular Sequence Data 

Nuclear Proteins: BI, biosynthesis 

Nuclear Proteins: CH, chemistry 



*Nuclear Proteins: ME, . 



=> s fusion (10a) green fluorescence ( 10a) librar### 

L9 0 FUSION (10A) GREEN FLUORESCENCE ( 1 OA) LIBRAR### 

=> s fusion (10a) green (10a) protein (10a) librar### 

L10 40 FUSION (10A) GREEN (10A) PROTEIN (10A) LIBRAR### 

=> s 110 and expres### 

Lll 15 L10 AND EXPRES### 

=> s 111 and cycloheximide 

L12 0 Lll AND CYCLOHEXIMIDE 

=> 111 and screen### 

Lll IS NOT A RECOGNIZED COMMAND 

The previous command name entered was not recognized by the system. 
For a list of commands available to you in the current file, enter 
"HELP COMMANDS" at an arrow prompt (=>) . 

=> s 111 and screen### 

L13 10 Lll AND SCREEN### 

=> s 113 and (inhibit### ( 10a) degradat###) 

L14 0 L13 AND ( INHIBIT### ( 10A) DEGRADAT###) 

=> s 113 and inhibit### 

L15 0 L13 AND INHIBIT### 

=> dup rem 113 

PROCESSING COMPLETED FOR L13 

LI 6 9 DUP REM LI 3 (1 DUPLICATE REMOVED) 

=> d 116 1-9 bib ab kwic 



L16 
AN 
DN 
TI 

IN 
PA 
SO 

DT 
LA 



ANSWER 1 OF 9 CAPLUS COPYRIGHT 2 0 04 ACS on STN DUPLICATE 1 
2003 : 296076 CAPLUS 
138 :315791 

Fusions of random peptide libraries in scaffold proteins such as green 
fluorescent protein or p-lactamase 

Anderson, David; Peelle, Beau Robert; Bogenberger, Jakob Maria 
Rigel Pharmaceuticals, Inc., USA 



U.S., 63 pp. , Cont . 
CODEN; USXXAM 
Patent 
English 



-in-part of U.S. 6,180,343. 



FAN.CNT 4 



PI 



PATENT NO. 


KIND 


DATE 


APPLICATION NO. 


DATE 


US 


6548632 


Bl 


20030415 


US 


1999-415765 


19991008 


US 


6180343 


Bl 


20010130 


US 


1998-169015 


19981008 


US 


6548249 


Bl 


20030415 


US 


2000-626581 


20000727 


us 


6562617 


Bl 


20030513 


US 


2000-626580 


20000727 


us 


2001003650 


Al 


20010614 


US 


2000-749959 


20001227 


us 


6596485 


B2 


20030722 








us 


2003143562 


Al 


20030731 


US 


2002-177725 


20020620 


us 


2003224412 


Al 


20031204 


US 


2003-393449 


20030318 


us 


1998-169015 


A2 


19981008 








us 


1999-415765 


A3 


19991008 








us 


2002-177725 


A2 


20020620 









AB 



particularly 



The invention relates to the use of scaffold proteins, 
green fluorescent protein (GFP) and p-lactamase 
TEM-1, in fusion constructs with random and defined peptides and 



peptide libraries. The fusions act to increase the cellular 
expression levels, decrease the cellular catabolism, increase the 
conformational stability relative to linear peptides, and increase the 
steady state concns . of the random peptides and random peptide library 
members expressed in cells for the purpose of detecting the 
presence of the peptides and screening random peptide libraries. 
N- terminal, C- terminal, dual N- and C- terminal, and one or more internal 
fusions are all contemplated. Internal fusions in Renilla GFP may be made 
in loops 1-5 (amino acid residues 130-135, 154-159, 172-175, 188-193, or 
208-216) for optimal presentation of the peptide. Inclusion of multiple 
highly flexible amino acid residues between GFP and the library allows 
minimal conformational constraints on the GFP. Designed insertion sites 
in loops 2-4 retain a high level of GFP fluorescence when the inserts are 
flanked by multiple glycines in the tetrapeptide linkers. Novel fusions 
utilizing self-binding peptides to create a conf ormationally stabilized 
fusion domain are also contemplated. 

RE.CNT 44 THERE ARE 44 CITED REFERENCES AVAILABLE FOR THIS RECORD 

ALL CITATIONS AVAILABLE IN THE RE FORMAT 

AB The invention relates to the use of scaffold proteins, particularly 
green fluorescent protein (GFP) and p-lactamase 

TEM-1, in fusion constructs with random and defined peptides and 
peptide libraries. The fusions act to increase the cellular 
expression levels, decrease the cellular catabolism, increase the , 
conformational stability relative to linear peptides, and increase the 
steady state concns. of the random peptides and random peptide library 
members expressed in cells for the purpose of detecting the 
presence of the peptides and screening random peptide libraries. 
N-terminal, C- terminal, dual N- and C-terminal, and one or more internal 
fusions are all contemplated. Internal fusions in Renilla GFP may be made 
in loops 1-5 (amino acid residues 130-135, 154-159, 172-175, 188-193, or 
208-216) for optimal presentation of the peptide. Inclusion of multiple 
highly flexible amino acid residues between GFP and the library allows 
minimal conformational constraints on the GFP. Designed insertion sites 
in loops 2-4 retain a high level of GFP fluorescence when the inserts are 
flanked by multiple glycines in the tetrapeptide linkers. Novel fusions 
utilizing self-binding peptides to create a conf ormationally stabilized 
fusion domain are also contemplated. 
ST scaffold protein fusion random peptide library; green 
fluorescent protein fusion random peptide 
library; lactamase fusion random peptide library 
IT Animal cell line 

(293, GFP fusions expressed in; fusions of random peptide 
libraries in scaffold proteins such as green fluorescent protein or 
p-lactamase) 
IT Animal cell line 

(JURKAT, GFP fusions expressed in; fusions of random peptide 
libraries in scaffold proteins such as green fluorescent protein or 
p-lactamase) 

L16 ANSWER 2 OF 9 CAPLUS COPYRIGHT 2 004 ACS on STN 
AN 2003:950623 CAPLUS 
DN 140:13712 

TI Structurally biased random peptide libraries based on different scaffolds 
IN Anderson, David; Peelle, Beau Robert; Bogenberger, Jakob Maria 
PA USA 

SO U.S. Pat. Appl. Publ., 110 pp., Cont . -in-part of U.S. Ser. No. 177,725. 

CODEN: USXXCO 
DT Patent 
LA English 
FAN.CNT 4 

PATENT NO. KIND DATE APPLICATION NO. DATE 



PI US 2003224412 Al 20031204 

US 6180343 Bl 20010130 



US 2003-393449 20030318 
US 1998-169015 19981008 



US 6548632 
US 2003143562 



Bl 
Al 



20030415 
20030731 



US 1999-415765 
US 2002-177725 



19991008 
20020620 



PRAI US 1998-169015 A2 19981008 

US 1999-415765 A2 19991008 

US 2002-177725 A2 20020620 
AB The invention relates to the use of scaffold proteins, particularly 

green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concns . of the library peptides 
and peptide library members expressed in cells for the purpose 
of detecting the presence of the peptides and screening peptide 
libraries. N- terminal, C-terminal, dual N- and C-terminal and one or more 
internal fusions are all contemplated. Novel fusions utilizing 
self-binding peptides to create a conf ormationally stabilized fusion 
domain are also contemplated. 
AB The invention relates to the use of scaffold proteins, particularly 
green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concns. of the library peptides 
and peptide library members expressed in cells for the purpose 
of detecting the presence of the peptides and screening peptide 
libraries. N- terminal, C-terminal, dual N- and C-terminal and one or more 
internal fusions are all contemplated. Novel fusions utilizing 
self-binding peptides to create a conformationally stabilized fusion 
domain are also contemplated. 
ST scaffold protein fusion random peptide library; green 
fluorescent protein fusion random peptide 
library; lactamase fusion random peptide library 

L16 ANSWER 3 OF 9 CAPLUS COPYRIGHT 2 004 ACS on STN 
AN 2003:590695 CAPLUS 
DN 139:144918 

TI Random peptide libraries in the context of a reporter protein scaffold for 

use in analysis of peptide effects on protein structure and function 
IN Anderson, David; Peelle, Beau Robert; Bogenberger, Jakob Maria 
PA Rigel Pharmaceuticals, Inc., USA 

SO U.S. Pat. Appl. Publ., 110 pp., Cont . -in-part of U. S. Ser. No. 415,765. 

CODEN: USXXCO 
DT Patent 
LA English 
FAN.CNT 4 





PATENT NO. 


KIND 


DATE 


APPLICATION NO. 


DATE 


PI 


US 


2003143562 


Al 


20030731 


US 2002-177725 


20020620 




US 


6180343 


Bl 


20010130 


US 1998-169015 


19981008 




us 


6548632 


Bl 


20030415 


US 1999-415765 


19991008 




us 


2003224412 


Al 


20031204 


US 2003-393449 


20030318 


PRAI 


us 


1998-169015 


A2 


19981008 








us 


1999-415765 


A2 


19991008 








us 


2002-177725 


A2 


20020620 







AB A method of using a reporter protein as a framework within which the 
effects of random peptides from a library on protein structure and 
function is described. A DNA library in which the gene for the reporter 
protein has sequences encoding random peptides inserted at defined sites 
is prepared and expressed in a suitable host. The library may be 
biased, e.g. to increase the possibility of including a peptide promoting 
an a-helical structure. The peptides may be at the N- terminal, the 
C-terminal, or at internal sites. The library is screened for 
members showing properties such as increases in cellular reporter 

concentration, 



increased stability from lower rates of cellular catabolism, increased 
conformational stability relative to linear peptides, and increased steady 
state concns . of the library peptides. A reporter protein may be replaced 
by a protein essential for cell survival. Novel fusions utilizing 
self-binding peptides to create a conf ormationally stabilized fusion 
domain are also contemplated. Loops in green fluorescent were identified 
as potential sites for the peptide library and test peptides. Tests with 
two different insertions showed consistent effects on protein fluorescence 
in Escherichia coli and mammalian cells. 

AB A method of using a reporter protein as a framework within which the 
effects of random peptides from a library on protein structure and 
function is described. A DNA library in which the gene for the reporter 
protein has sequences encoding random peptides inserted at defined sites 
is prepared and expressed in a suitable host. The library may be 
biased, e.g. to increase the possibility of including a peptide promoting 
an a-helical structure. The peptides may be at the N- terminal, the 
C-terminal, or at internal sites. The library is screened for 
members showing properties such as increases in cellular reporter 

concentration, 

increased stability from lower rates of cellular catabolism, increased 
conformational stability relative to linear peptides, and increased steady 
state concns. of the library peptides. A reporter protein may be replaced 
by a protein essential for cell survival. Novel fusions utilizing 
self-binding peptides to create a conf ormationally stabilized fusion 
domain are also contemplated. Loops in green fluorescent were identified 
as potential sites for the peptide library and test peptides. Tests with 
two different insertions showed consistent effects on protein fluorescence 
in Escherichia coli and mammalian cells. 

ST scaffold protein fusion random peptide library; green 
fluorescent protein fusion random peptide 
library; lactamase fusion random peptide library 

IT Peptides, biological studies 

RL: BSU (Biological study, unclassified) ; BIOL (Biological study) 
(bioactive, screening for; random peptide libraries in 
context of reporter protein scaffold for use in anal, of peptide 
effects on protein structure and function) 

L16 ANSWER 4 OF 9 BIOSIS COPYRIGHT 2 004 BIOLOGICAL ABSTRACTS INC. on STN 
AN 2003:378382 BIOSIS 
DN PREV2 003 0 03783 82 

TI Green fluorescent protein fusions with random peptides. 

AU Anderson, David [Inventor, Reprint Author] ; Bogenberger, Jakob Maria 

[Inventor] 
CS Menlo Park, CA, USA 

ASSIGNEE: Rigel Pharmaceuticals, Inc. 
PI US 6596485 July 22, 2003 

SO Official Gazette of the United States Patent and Trademark Office Patents, 
(July 22 2003) Vol. 1272, No. 4. http://www.uspto.gov/web/menu/patdata.htm 
1. e-file.. 

ISSN: 0098-1133 (ISSN print) . 
DT Patent 
LA English 

ED Entered STN: 13 Aug 2003 

Last Updated on STN: 13 Aug 2 003 
AB The invention relates to the use of fluorescent proteins, particularly 

green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concentrations of the random 
peptides and random peptide library members expressed in cells 
for the purpose of detecting the presence of the peptides and 
screening random peptide libraries. N- terminal, C-terminal, dual 
N- and C-terminal and one or more internal fusions are all contemplated. 



Novel fusions utilizing self -binding peptides to create a conf ormationally 
stabilized fusion domain are also contemplated. 
AB The invention relates to the use of fluorescent proteins, particularly 
green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concentrations of the random 
peptides and random peptide library members expressed in cells 
for the purpose of detecting the presence of the peptides and 
screening random peptide libraries. N- terminal, C-terminal, dual 
N- and C-terminal and one or more internal fusions are all contemplated. 
Novel fusions. 
IT Methods & Equipment 

random peptide library screening: laboratory techniques 

L16 ANSWER 5 OF 9 BIOSIS COPYRIGHT 2 0 04 BIOLOGICAL ABSTRACTS INC. on STN 
AN 2003:280434 BIOSIS 
DN PREV2 003 0 02 8 0434 

TI Fusions of scaffold proteins with random peptide libraries. 

AU Anderson, David [Inventor, Reprint Author] ; Peelle, Beau Robert 

[Inventor] ; Bogenberger, Jakob Maria [Inventor] 
CS ASSIGNEE: Rigel Pharmaceuticals, Inc. 
PI US 6562617 May 13, 2003 

SO Official Gazette of the United States Patent and Trademark Office Patents, 
(May 13 2003) Vol. 1270, No. 2. http://www.uspto.gov/web/menu/patdata.html 
. e-file. 

ISSN: 0098-1133 (ISSN print) . 
DT Patent 
LA English 

ED Entered STN : 11 Jun 2 003 

Last Updated on STN: 11 Jun 2 003 
AB The invention relates to the use of scaffold proteins, particularly 

green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concentrations of the random 
peptides and random peptide library members expressed in cells 
for the purpose of detecting the presence of the peptides and 
screening random peptide libraries. N- terminal, C-terminal, dual 
N- and C-terminal and one or more internal fusions are all contemplated. 
Novel fusions utilizing self-binding peptides to create a conf ormationally 
stabilized fusion domain are also contemplated. 
AB The invention relates to the use of scaffold proteins, particularly 
green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concentrations of the random 
peptides and random peptide library members expressed in cells 
for the purpose of detecting the presence of the peptides and 
screening random peptide libraries. N-terminal, C-terminal, dual 
N- and C-terminal and one or more internal fusions are all contemplated. 
Novel fusions. 

ANSWER 6 OF 9 BIOSIS COPYRIGHT 2 004 BIOLOGICAL ABSTRACTS INC. on STN 
2003 :227250 BIOSIS 
PREV200300227250 

Fusions of scaffold proteins with random peptide libraries. 
Anderson, David [Inventor, Reprint Author] ; Peelle, Beau Robert 
[Inventor] ; Bogenberger, Jakob Maria [Inventor] 
San Bruno, CA, USA 

ASSIGNEE: Rigel Pharmaceuticals, Inc. 



L16 

AN 

DN 

TI 

AU 

CS 



PI US 6548249 April 15, 2003 

SO Official Gazette of the United States Patent and Trademark Office Patents, 
(Apr 15 2003) Vol. 1269, No. 3. http://www.uspto.gov/web/menu/patdata.html 
. e-file. 

ISSN: 0098-1133 (ISSN print) . 
DT Patent 
LA English 

ED Entered STN : 7 May 2 003 

Last Updated on STN : 7 May 2003 
AB The invention relates to the use of scaffold proteins, particularly 

green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concentrations of the random 
peptides and random peptide library members expressed in cells 
for the purpose of detecting the presence of the peptides and 
screening random peptide libraries. N-terminal, C-terminal, dual 
N- and C-terminal and one or more internal fusions are all contemplated. 
Novel fusions utilizing self-binding peptides to create a conf ormationally 
stabilized fusion domain are also contemplated. 
AB The invention relates to the use of scaffold proteins, particularly 
green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concentrations of the random 
peptides and random peptide library members expressed in cells 
for the purpose of detecting the presence of the peptides and 
screening random peptide libraries. N-terminal, C-terminal, dual 
N- and C-terminal and one or more internal fusions are all contemplated. 
Novel fusions. 
IT Methods & Equipment 

peptide detection: laboratory techniques; random peptide library 

screening: laboratory techniques 

L16 ANSWER 7 OF 9 CAPLUS COPYRIGHT 2004 ACS on STN 
AN 2000:241464 CAPLUS 
DN 132:261918 

TI Fusions of scaffold proteins with random peptide libraries 
IN Anderson, David; Bogenberger, Jakob Maria; Peelle, Beau Robert 
PA Rigel Pharmaceuticals, Inc., USA 
SO PCT Int. Appl., 89 pp. 

CODEN: PIXXD2 
DT Patent 
LA English 
FAN.CNT 4 

PATENT NO. KIND DATE APPLICATION NO. DATE 



PI 



WO 


2000020574 


A2 


20000413 




WO 1999-US23715 


19991008 






wo 


2000020574 


A3 


20000921 
























W: 


AE, 


AL, 


AM, 


AT, 


AU, 


AZ, 


BA, 


BB, 


BG, 


BR, 


BY, 


CA, 


CH, 


CN, 


cu, 


cz, 






DE, 


DK, 


EE, 


ES, 


FI, 


GB, 


GD, 


GE, 


GH, 


GM, 


HR, 


HU, 


ID, 


IL, 


IN, 


is, 






JP, 


KE, 


KG, 


KP, 


KR, 


KZ, 


LC, 


LK, 


LR, 


LS, 


LT, 


LU, 


LV, 


MD, 


MG, 


MK, 






MN, 


MW, 


MX, 


NO, 


NZ, 


PL, 


PT, 


RO, 


RU, 


SD, 


SE, 


SG, 


SI, 


SK, 


SL, 


TJ, 






TM, 


TR, 


TT, 


TZ, 


UA, 


UG, 


UZ, 


VN, 


YU, 


ZA, 


ZW, 


AM, 


AZ, 


BY, 


KG, 


KZ, 






MD, 


RU, 


TJ, 


TM 




























RW: 


GH, 


GM, 


KE, 


LS, 


MW, 


SD, 


SL, 


SZ, 


TZ, 


UG, 


ZW, 


AT, 


BE, 


CH, 


CY, 


DE, 






DK, 


ES, 


FI, 


FR, 


GB, 


GR, 


IE, 


IT, 


LU, 


MC, 


NL, 


PT, 


SE, 


BF, 


BJ, 


CF, 






CG, 


CI, 


CM, 


GA, 


GN, 


GW, 


ML, 


MR, 


NE, 


SN, 


TD, 


TG 










US 


6180343 




Bl 


20010130 




US 1998-169015 


19981008 






CA 


2345215 




AA 


20000413 




CA 1999-2345215 


19991008 






EP 


1119617 




A2 


20010801 




EP 1999-957466 


19991008 








R: 


AT, 


BE, 


CH, 


DE, 


DK, 


ES, 


FR, 


GB, 


GR, 


IT, 


LI, 


LU, 


NL, 


SE, 


MC, 


PT, 



IE, SI, LT, LV, FI, RO 
JP 2002526108 T2 20020820 JP 2000-574670 19991008 

AU 768126 B2 20031204 AU 2000-15164 19991008 

US 2001003650 Al 20010614 US 2000-749959 20001227 

US 6596485 B2 20030722 

PRAI US 1998-169015 A 19981008 
WO 1999-US23715 W 19991008 

AB The invention relates to the use of scaffold proteins, particularly 
green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concns . of the random peptides 
and random peptide library members expressed in cells for the 
purpose of detecting the presence of the peptides and screening 
random peptide libraries. N- terminal, C- terminal, dual N- and C- terminal 
and one or more internal fusions are all contemplated. Novel fusions 
utilizing self -binding peptides to create a conf ormationally stabilized 
fusion domain are also contemplated. Thus, expts. to identify sites which 
may be used to insert peptides into GFP are described. 
AB The invention relates to the use of scaffold proteins, particularly 
green fluorescent protein (GFP) , in fusion 

constructs with random and defined peptides and peptide libraries 
, to increase the cellular expression levels, decrease the cellular 
catabolism, increase the conformational stability relative to linear 
peptides, and to increase the steady state concns. of the random peptides 
and random peptide library members expressed in cells for the 
purpose of detecting the presence of the peptides and screening 
random peptide libraries. N-terminal, C-terminal, dual N- and C- terminal 
and one or more internal fusions are all contemplated. Novel fusions 
utilizing self-binding peptides to create a conf ormationally stabilized 
fusion domain are also contemplated. Thus, expts. to identify sites which 
may be used to insert peptides into GFP are described. 
ST scaffold protein peptide fusion library; green fluorescent 
protein peptide fusion library 

LI 6 ANSWER 8 OF 9 CAPLUS COPYRIGHT 2 0 04 ACS on STN 
AN 2000:114405 CAPLUS 
DN 132:147593 

TI Methods and compositions for peptide libraries displayed on light-emitting 

scaffolds of proteins 
IN Kamb, Carl Alexander; Abedi , Ma j id 
PA Arcaris, Inc., USA 

SO U.S., 24 pp., Cont. -in-part of U.S. 5,955,275. 

CODEN: USXXAM 
DT Patent 
LA English 
FAN.CNT 11 

PATENT NO. KIND DATE APPLICATION NO. DATE 



US 


6025485 




A 


20000215 




US 


6623922 




Bl 


20030923 




US 


5955275 




A 


19990921 




CA 


2309543 




AA 


19990520 




WO 


9924617 




Al 


19990520 






W: 


AL, 


AM, 


AT, AU, 


AZ, 


BA, 


BB, 






DK, 


EE, 


ES, FI, 


GB, 


GD, 


GE, 






KG, 


KP, 


KR, KZ, 


LC, 


LK, 


LR, 






MX, 


NO, 


NZ, PL, 


PT, 


RO, 


RU, 






TT, 


UA, 


UG, US, 


UZ, 


VN, 


YU, 




RW: 


GH, 


GM, 


KE, LS, 


MW, 


SD, 


SZ, 






FI, 


FR, 


GB, GR, 


IE, 


IT, 


LU, 






CM, 


GA, 


GN, GW, 


ML, 


MR, 


NE, 


AU 


9915200 




Al 


19990531 





US 1997-965477 19971106 

US 1997-800664 19970214 

US 1997-812994 19970304 

CA 1998-2309543 19981106 

WO 1998-US23778 19981106 



BG, 


BR, 


BY, 


CA, 


CH, 


CN, 


CU, 


CZ, 


DE, 


GH, 


GM, 


HR, 


HU, 


ID, 


IL, 


IS, 


JP, 


KE, 


LS, 


LT, 


LU, 


LV, 


MD, 


MG, 


MK, 


MN, 


MW, 


SD, 


SE, 


SG, 


SI / 


SK, 


SL, 


TJ, 


TM, 


TR, 


ZW, 


AM, 


AZ, 


BY, 


KG, 


KZ, 


MD, 


RU, 


TJ, 


UG, 


ZW, 


AT, 


BE, 


CH, 


CY, 


DE, 


DK, 


ES, 


MC, 


NL, 


PT, 


SE, 


BF, 


BJ, 


CF, 


CG, 


CI, 


SN, 


TD, 


TG 















AU 1999-15200 19981106 



EP 1029081 Al 20000823 EP 1998-959391 19981106 

R: AT, BE, CH, DE, DK, ES, FR, GB, GR, IT, LI, LU, NL, SE, MC, PT, 



IE, FI 



Jp 


o /\ /*k i r~ «™» i r - n 

2 001522587 


T2 


2 001112 0 


JP 


2000 - 


519609 


T QQ01 1 A C 

iy y oi iuo 


us 


6566057 


Bl 


2003 052 0 


US 


1999- 


269006 


iy y yuj l / 


NO 


2 000002375 


A 


2000063 0 


NO 


2000- 


2375 


zUUUUoUb 


US 


2 00213222 9 


Al 


2002 0919 


US 


2001- 


929663 


2. U U 10 o 14 


US 


2002090605 


Al 


2002 0711 


US 


2001- 


935929 


20010823 


PRAI US 


1997-800664 


A2 


19970214 










US 


1997-812994 


A2 


19970304 










US 


1996-699266 


A2 


19960819 










WO 


1997-US14514 


A2 


19970819 










US 


1997-965477 


A 


19971106 










wo 


1998-US23778 


W 


19981106 










US 


1999-259155 


Bl 


19990226 










us 


1999-378420 


Bl 


19990820 











AB Methods and compns . for peptides or protein fragments displayed on 
scaffolds and libraries of sequences encoding peptides or protein 
fragments displayed on scaffolds that permit the properties of the library 
to be easily and quant, monitored are disclosed. The scaffold is a 
protein that is capable of emitting light. Thus, solvent -exposed loops 
are identified in the Aequorea victoria green fluorescent protein (GFP) 
which can accommodate and present random aptamers while allowing GFP to 
retain its autof luorescent properties; these loops optimally comprise 
amino acid residues Alal55 -Ilel61, Lysl62-Glnl83 , and Glnl84 -Ser205 . A 
minibody (Ig) -GFP scaffold system is also described. The plasmid vector 
pVT21, which permits induction of GFP expression in the presence of 
galactose, was obtained by manipulation of pACA151, a 6.7-kb 2\jl yeast 
shuttle vector containing a red-shifted (S65T) GFP expression cassette and the 
phosphoglycerate kinase 3" end. Thus, anal, of the expression of 
individual members of the library when they are expressed in 
cells may be carried out using instruments that can analyze the emitted 
light, such as flow sorter (FACS) , a spectrophotometer, a microtiter plate 
reader, a CCD, a fluorescence microscope, or other similar device. This 
permits screening of the expression library in host cells on a 
cell -by-cell basis, and enrichment of the library for sequences that have 
predetd . characteristics . 

RE.CNT 7 THERE ARE 7 CITED REFERENCES AVAILABLE FOR THIS RECORD 

ALL CITATIONS AVAILABLE IN THE RE FORMAT 

AB Methods and compns. for peptides or protein fragments displayed on 
scaffolds and libraries of sequences encoding peptides or protein 
fragments displayed on scaffolds that permit the properties of the library 
to be easily and quant, monitored are disclosed. The scaffold is a 
protein that is capable of emitting light. Thus, solvent -exposed loops 
are identified in the Aequorea victoria green fluorescent protein (GFP) 
which can accommodate and present random aptamers while allowing GFP to 
retain its autof luorescent properties; these loops optimally comprise 
amino acid residues Alal55 -Ilel61, Lysl62 -Glnl83 , and Glnl84 -Ser205 . A 
minibody (Ig) -GFP scaffold system is also described. The plasmid vector 
pVT21, which permits induction of GFP expression in the presence of 
galactose, was obtained by manipulation of pACA151, a 6.7-kb 2u yeast 
shuttle vector containing a red-shifted (S65T) GFP expression cassette and the 
phosphoglycerate kinase 3' end. Thus, anal, of the expression of 
individual members of the library when they are expressed in 
cells may be carried out using instruments that can analyze the emitted 
light, such as flow sorter (FACS) , a spectrophotometer, a microtiter plate 
reader, a CCD, a fluorescence microscope, or other similar device. This 
permits screening of the expression library in host cells on a 
cell -by-cell basis, and enrichment of the library for sequences that have 
predetd. characteristics. 

IT Immunoglobulins 

RL: ARU (Analytical role, unclassified); BPN (Biosynthetic preparation); 
BPR (Biological process) ,- BSU (Biological study, unclassified) ; ANST 
(Analytical study) ; BIOL (Biological study) ; PREP (Preparation) ; PROC 



(Process) 

(fusion products, green fluorescent protein 

fusion library; methods and compns . for peptide 

libraries displayed on light -emitting scaffolds of proteins) 

L16 ANSWER 9 OF 9 CAPLUS COPYRIGHT 2 004 ACS on STM 
AN 1999:330461 CAPLUS 
DN 130:333721 

TI Methods and compositions for peptide libraries displayed on light-emitting 

scaffolds of proteins 
IN Kamb, Carl Alexander; Abedi, Majid 
PA Ventana Genetics, Inc., USA 
SO PCT Int. Appl., 56 pp. 

CODEN: PIXXD2 
DT Patent 
LA English 



FAN.CNT 11 

PATENT NO. 




KIND 


DATE 






APPLICATION NO. 


DATE 






PI WO 


'9924617 




Al 


19990520 




WO 1998-US23778 


19981106 








W: AL, 


AM, 


AT, AU, 


AZ, 


BA, 


BB, 


BG, BR, 


BY, 


CA, CH, 


CN, CU, 


CZ, 


DE, 




DK, 


EE, 


ES, FI, 


GB, 


GD, 


GE, 


GH, GM, 


HR, 


HU, ID, 


IL, IS, 


UP/ 


KE, 




KG, 


KP, 


KR, KZ, 


LC, 


LK, 


LR, 


LS, LT, 


LU, 


LV, MD, 


MG, MK, 


MN, 


MW, 




MX, 


NO, 


NZ , PL , 


PT, 


RO, 


RU, 


SD, SE, 


SG, 


SI, SK, 


SL, TJ, 


TM, 


TR, 




TT, 


UA, 


UG, US, 


UZ, 


VN, 


YU, 


ZW, AM, 


AZ, 


BY, KG, 


KZ, MD, 


RU, 


TJ, 




RW: GH, 


GM, 


KE, LS, 


MW, 


SD, 


SZ, 


UG, ZW, 


AT, 


BE, CH, 


CY, DE, 


DK, 


ES, 




FI, 


FR, 


GB, GR, 


IE, 


IT, 


LU, 


MC, NL, 


PT, 


SE, BF, 


BJ, CF, 


CG, 


CI, 




CM, 


GA, 


GN, GW, 


ML, 


MR, 


NE, 


SN, TD, 


TG 










US 


6025485 




A 


20000215 




US 1997-965477 


19971106 






CA 


2309543 




AA 


19990520 




CA 1998-2309543 


19981106 






AU 


9915200 




Al 


19990531 




AU 1999-15200 


19981106 






EP 


1029081 




Al 


20000823 




EP 1998-959391 


19981106 








R: AT, 


BE, 


CH, DE, 


DK, 


ES, 


FR, 


GB, GR, 


IT, 


LI, LU, 


NL, SE, 


MC, 


PT, 




IE, 


FI 






















JP 


2001522587 


T2 


20011120 




JP 2000-519609 


19981106 






US 


6566057 




Bl 


20030520 




US 1999-269006 


19990317 






NO 


2000002375 


A 


20000630 




NO 2000-2375 


20000505 






PRAI US 


1997-965477 


A 


19971106 
















US 


1997-800664 


A2 


19970214 
















US 


1997-812994 


A2 


19970304 
















WO 


1998-US23778 


W 


19981106 

















TM 



AB Methods and compns. for peptides or protein fragments displayed on 
scaffolds and libraries of sequences encoding peptides or protein 
fragments displayed on scaffolds that permit the properties of the library 
to be easily and quant, monitored are disclosed. The scaffold is a 
protein that is capable of emitting light. Thus, anal, of the expression 
of individual members of the library when they are expressed in 
cells may be carried out using instruments that can analyze the emitted 
light, such as a flow sorter (FACS) , a spectrophotometer, a microtiter 
plate reader, a CCD, a fluorescence microscope, or other similar device. 
This permits screening of the expression library in host cells 
on a cell -by-cell basis, and enrichment of the library for sequences that 
have predetd. characteristics. 

RE.CNT 4 THERE ARE 4 CITED REFERENCES AVAILABLE FOR THIS RECORD 

ALL CITATIONS AVAILABLE IN THE RE FORMAT 

AB Methods and compns. for peptides or protein fragments displayed on 
scaffolds and libraries of sequences encoding peptides or protein 
fragments displayed on scaffolds that permit the properties of the library 
to be easily and quant, monitored are disclosed. The scaffold is a 
protein that is capable of emitting light. Thus, anal, of the expression 
of individual members of the library when they are expressed in 
cells may be carried out using instruments that can analyze the emitted 
light, such as a flow sorter (FACS) , a spectrophotometer, a microtiter 
plate reader, a CCD, a fluorescence microscope, or other similar device. 



This permits screening of the expression library in host cells 

on a cell -by-cell basis, and enrichment of the library for sequences that 

have predetd. characteristics. 
ST peptide library fusion light emitting scaffold 

green fluorescent protein 
IT Immunoglobulins 

RL: ARU (Analytical role, unclassified) ; BPN (Biosynthetic preparation) ; 

BPR (Biological process) ; BSU (Biological study, unclassified) ; ANST 

(Analytical study) ; BIOL (Biological study) ; PREP (Preparation) ; PROC 

(Process) 

(green fluorescent protein fusion 

library; methods and compns . for peptide libraries 
displayed on light-emitting scaffolds of proteins)